Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.1437.1

Experiment: Supernatant; Trichoderma atroviride IMI tmk3mutant grown in Vogels_fungal_media, filtered; 0.2X

Add experiment(s):

Zoom: Pan:

Only strains with sufficient reads to estimate fitness are shown, but the strain fitness values are still rather noisy and may be biased towards zero. Strains near the edge of a gene are not shown as being associated with that gene (they are in grey). Strains in the central 10-90% of a gene are color coded by the insertion's strand. Usually, "+" means that the selectable marker is encoded on the forward strand, i.e., transcribed rightward.

download SVG
500 ntXcc-8004.1435.1 and Xcc-8004.1436.1 are separated by 112 nucleotidesXcc-8004.1436.1 and Xcc-8004.1437.1 are separated by 199 nucleotidesXcc-8004.1437.1 and Xcc-8004.1438.1 are separated by 2 nucleotides Xcc-8004.1435.1: Xcc-8004.1435.1 - Crossover junction endodeoxyribonuclease RuvC (EC 3.1.22.4), at 1,374,637 to 1,375,161 Xcc-8004.1435.1 Xcc-8004.1436.1: Xcc-8004.1436.1 - Holliday junction DNA helicase RuvA, at 1,375,274 to 1,375,858 Xcc-8004.1436.1 Xcc-8004.1437.1: Xcc-8004.1437.1 - Kup system potassium uptake protein, at 1,376,058 to 1,377,965 Xcc-8004.1437.1 Xcc-8004.1438.1: Xcc-8004.1438.1 - FIG01214064: hypothetical protein, at 1,377,968 to 1,379,089 Xcc-8004.1438.1 Position (kb) 1376 1377 1378Strain fitness (log2 ratio) -2 -1 0 1 2at 1375.131 kb on + strandat 1375.304 kb on + strandat 1375.304 kb on + strandat 1375.305 kb on - strandat 1375.380 kb on - strand, within Xcc-8004.1436.1at 1375.380 kb on - strand, within Xcc-8004.1436.1at 1375.380 kb on - strand, within Xcc-8004.1436.1at 1375.424 kb on + strand, within Xcc-8004.1436.1at 1375.454 kb on + strand, within Xcc-8004.1436.1at 1375.758 kb on - strand, within Xcc-8004.1436.1at 1375.857 kb on - strandat 1375.933 kb on + strandat 1375.984 kb on + strandat 1376.175 kb on + strandat 1376.175 kb on + strandat 1376.176 kb on - strandat 1376.176 kb on - strandat 1376.205 kb on + strandat 1376.290 kb on - strand, within Xcc-8004.1437.1at 1376.290 kb on - strand, within Xcc-8004.1437.1at 1376.391 kb on + strand, within Xcc-8004.1437.1at 1376.391 kb on + strand, within Xcc-8004.1437.1at 1376.392 kb on - strand, within Xcc-8004.1437.1at 1376.392 kb on - strand, within Xcc-8004.1437.1at 1376.446 kb on + strand, within Xcc-8004.1437.1at 1376.446 kb on + strand, within Xcc-8004.1437.1at 1376.446 kb on + strand, within Xcc-8004.1437.1at 1376.447 kb on - strand, within Xcc-8004.1437.1at 1376.788 kb on - strand, within Xcc-8004.1437.1at 1376.868 kb on + strand, within Xcc-8004.1437.1at 1376.868 kb on + strand, within Xcc-8004.1437.1at 1376.868 kb on + strand, within Xcc-8004.1437.1at 1376.869 kb on - strand, within Xcc-8004.1437.1at 1376.869 kb on - strand, within Xcc-8004.1437.1at 1376.869 kb on - strand, within Xcc-8004.1437.1at 1376.869 kb on - strand, within Xcc-8004.1437.1at 1377.009 kb on - strand, within Xcc-8004.1437.1at 1377.051 kb on + strand, within Xcc-8004.1437.1at 1377.105 kb on + strand, within Xcc-8004.1437.1at 1377.106 kb on - strand, within Xcc-8004.1437.1at 1377.106 kb on - strand, within Xcc-8004.1437.1at 1377.192 kb on + strand, within Xcc-8004.1437.1at 1377.192 kb on + strand, within Xcc-8004.1437.1at 1377.192 kb on + strand, within Xcc-8004.1437.1at 1377.193 kb on - strand, within Xcc-8004.1437.1at 1377.609 kb on - strand, within Xcc-8004.1437.1at 1377.609 kb on - strand, within Xcc-8004.1437.1at 1377.693 kb on + strand, within Xcc-8004.1437.1at 1377.736 kb on + strand, within Xcc-8004.1437.1at 1377.993 kb on - strandat 1377.993 kb on - strandat 1378.127 kb on + strand, within Xcc-8004.1438.1at 1378.127 kb on + strand, within Xcc-8004.1438.1at 1378.127 kb on + strand, within Xcc-8004.1438.1at 1378.127 kb on + strand, within Xcc-8004.1438.1at 1378.127 kb on + strand, within Xcc-8004.1438.1at 1378.127 kb on + strand, within Xcc-8004.1438.1at 1378.127 kb on + strand, within Xcc-8004.1438.1at 1378.127 kb on + strand, within Xcc-8004.1438.1at 1378.128 kb on - strand, within Xcc-8004.1438.1at 1378.128 kb on - strand, within Xcc-8004.1438.1at 1378.128 kb on - strand, within Xcc-8004.1438.1at 1378.128 kb on - strand, within Xcc-8004.1438.1at 1378.128 kb on - strand, within Xcc-8004.1438.1at 1378.128 kb on - strand, within Xcc-8004.1438.1at 1378.136 kb on + strand, within Xcc-8004.1438.1at 1378.230 kb on + strand, within Xcc-8004.1438.1at 1378.231 kb on - strand, within Xcc-8004.1438.1at 1378.283 kb on + strand, within Xcc-8004.1438.1at 1378.283 kb on + strand, within Xcc-8004.1438.1at 1378.284 kb on - strand, within Xcc-8004.1438.1at 1378.284 kb on - strand, within Xcc-8004.1438.1at 1378.388 kb on + strand, within Xcc-8004.1438.1at 1378.388 kb on + strand, within Xcc-8004.1438.1at 1378.389 kb on - strand, within Xcc-8004.1438.1at 1378.389 kb on - strand, within Xcc-8004.1438.1at 1378.389 kb on - strand, within Xcc-8004.1438.1at 1378.389 kb on - strand, within Xcc-8004.1438.1at 1378.421 kb on + strand, within Xcc-8004.1438.1at 1378.421 kb on + strand, within Xcc-8004.1438.1at 1378.421 kb on + strand, within Xcc-8004.1438.1at 1378.421 kb on + strand, within Xcc-8004.1438.1at 1378.422 kb on - strand, within Xcc-8004.1438.1at 1378.422 kb on - strand, within Xcc-8004.1438.1at 1378.530 kb on - strand, within Xcc-8004.1438.1at 1378.530 kb on - strand, within Xcc-8004.1438.1at 1378.697 kb on + strand, within Xcc-8004.1438.1at 1378.697 kb on + strand, within Xcc-8004.1438.1at 1378.697 kb on + strand, within Xcc-8004.1438.1at 1378.697 kb on + strand, within Xcc-8004.1438.1at 1378.721 kb on - strand, within Xcc-8004.1438.1at 1378.766 kb on + strand, within Xcc-8004.1438.1at 1378.767 kb on - strand, within Xcc-8004.1438.1at 1378.799 kb on + strand, within Xcc-8004.1438.1at 1378.799 kb on + strand, within Xcc-8004.1438.1at 1378.799 kb on + strand, within Xcc-8004.1438.1at 1378.800 kb on - strand, within Xcc-8004.1438.1at 1378.800 kb on - strand, within Xcc-8004.1438.1at 1378.800 kb on - strand, within Xcc-8004.1438.1at 1378.800 kb on - strand, within Xcc-8004.1438.1at 1378.800 kb on - strand, within Xcc-8004.1438.1at 1378.803 kb on + strand, within Xcc-8004.1438.1at 1378.804 kb on - strand, within Xcc-8004.1438.1at 1378.804 kb on - strand, within Xcc-8004.1438.1at 1378.883 kb on + strand, within Xcc-8004.1438.1at 1378.883 kb on + strand, within Xcc-8004.1438.1at 1378.883 kb on + strand, within Xcc-8004.1438.1at 1378.883 kb on + strand, within Xcc-8004.1438.1at 1378.884 kb on - strand, within Xcc-8004.1438.1at 1378.884 kb on - strand, within Xcc-8004.1438.1at 1378.884 kb on - strand, within Xcc-8004.1438.1at 1378.884 kb on - strand, within Xcc-8004.1438.1at 1378.884 kb on - strand, within Xcc-8004.1438.1at 1378.884 kb on - strand, within Xcc-8004.1438.1at 1378.884 kb on - strand, within Xcc-8004.1438.1at 1378.884 kb on - strand, within Xcc-8004.1438.1

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Supernatant; Trichoderma atroviride IMI tmk3mutant grown in Vogels_fungal_media, filtered; 0.2X
remove
1,375,131 + -0.3
1,375,304 + -1.0
1,375,304 + -0.7
1,375,305 - -0.6
1,375,380 - Xcc-8004.1436.1 0.18 -1.2
1,375,380 - Xcc-8004.1436.1 0.18 -0.7
1,375,380 - Xcc-8004.1436.1 0.18 -0.2
1,375,424 + Xcc-8004.1436.1 0.26 +0.6
1,375,454 + Xcc-8004.1436.1 0.31 +0.3
1,375,758 - Xcc-8004.1436.1 0.83 -0.7
1,375,857 - -0.5
1,375,933 + +1.6
1,375,984 + +0.6
1,376,175 + -1.1
1,376,175 + -0.7
1,376,176 - -0.3
1,376,176 - +0.6
1,376,205 + +0.4
1,376,290 - Xcc-8004.1437.1 0.12 +1.6
1,376,290 - Xcc-8004.1437.1 0.12 +0.6
1,376,391 + Xcc-8004.1437.1 0.17 -1.0
1,376,391 + Xcc-8004.1437.1 0.17 -0.6
1,376,392 - Xcc-8004.1437.1 0.18 -0.2
1,376,392 - Xcc-8004.1437.1 0.18 -0.6
1,376,446 + Xcc-8004.1437.1 0.20 +1.0
1,376,446 + Xcc-8004.1437.1 0.20 -0.6
1,376,446 + Xcc-8004.1437.1 0.20 -1.8
1,376,447 - Xcc-8004.1437.1 0.20 +0.3
1,376,788 - Xcc-8004.1437.1 0.38 +1.9
1,376,868 + Xcc-8004.1437.1 0.42 -1.7
1,376,868 + Xcc-8004.1437.1 0.42 -1.3
1,376,868 + Xcc-8004.1437.1 0.42 +1.0
1,376,869 - Xcc-8004.1437.1 0.43 -0.9
1,376,869 - Xcc-8004.1437.1 0.43 -1.5
1,376,869 - Xcc-8004.1437.1 0.43 -1.0
1,376,869 - Xcc-8004.1437.1 0.43 -0.4
1,377,009 - Xcc-8004.1437.1 0.50 +0.1
1,377,051 + Xcc-8004.1437.1 0.52 -1.4
1,377,105 + Xcc-8004.1437.1 0.55 +0.8
1,377,106 - Xcc-8004.1437.1 0.55 -1.0
1,377,106 - Xcc-8004.1437.1 0.55 -0.6
1,377,192 + Xcc-8004.1437.1 0.59 -2.1
1,377,192 + Xcc-8004.1437.1 0.59 +1.6
1,377,192 + Xcc-8004.1437.1 0.59 -0.2
1,377,193 - Xcc-8004.1437.1 0.59 +0.5
1,377,609 - Xcc-8004.1437.1 0.81 -0.9
1,377,609 - Xcc-8004.1437.1 0.81 +0.3
1,377,693 + Xcc-8004.1437.1 0.86 +1.3
1,377,736 + Xcc-8004.1437.1 0.88 +0.3
1,377,993 - +1.1
1,377,993 - +0.3
1,378,127 + Xcc-8004.1438.1 0.14 +0.2
1,378,127 + Xcc-8004.1438.1 0.14 -0.5
1,378,127 + Xcc-8004.1438.1 0.14 +0.0
1,378,127 + Xcc-8004.1438.1 0.14 -0.2
1,378,127 + Xcc-8004.1438.1 0.14 -0.3
1,378,127 + Xcc-8004.1438.1 0.14 -0.1
1,378,127 + Xcc-8004.1438.1 0.14 +0.4
1,378,127 + Xcc-8004.1438.1 0.14 -0.5
1,378,128 - Xcc-8004.1438.1 0.14 -0.6
1,378,128 - Xcc-8004.1438.1 0.14 -1.0
1,378,128 - Xcc-8004.1438.1 0.14 +0.4
1,378,128 - Xcc-8004.1438.1 0.14 +0.3
1,378,128 - Xcc-8004.1438.1 0.14 -1.3
1,378,128 - Xcc-8004.1438.1 0.14 +0.5
1,378,136 + Xcc-8004.1438.1 0.15 +2.3
1,378,230 + Xcc-8004.1438.1 0.23 +0.7
1,378,231 - Xcc-8004.1438.1 0.23 -0.4
1,378,283 + Xcc-8004.1438.1 0.28 -0.7
1,378,283 + Xcc-8004.1438.1 0.28 -0.1
1,378,284 - Xcc-8004.1438.1 0.28 -0.2
1,378,284 - Xcc-8004.1438.1 0.28 +0.0
1,378,388 + Xcc-8004.1438.1 0.37 -0.2
1,378,388 + Xcc-8004.1438.1 0.37 +1.1
1,378,389 - Xcc-8004.1438.1 0.38 +0.6
1,378,389 - Xcc-8004.1438.1 0.38 -0.3
1,378,389 - Xcc-8004.1438.1 0.38 -1.7
1,378,389 - Xcc-8004.1438.1 0.38 +0.1
1,378,421 + Xcc-8004.1438.1 0.40 +1.3
1,378,421 + Xcc-8004.1438.1 0.40 +1.7
1,378,421 + Xcc-8004.1438.1 0.40 +0.6
1,378,421 + Xcc-8004.1438.1 0.40 -1.3
1,378,422 - Xcc-8004.1438.1 0.40 -0.1
1,378,422 - Xcc-8004.1438.1 0.40 -2.0
1,378,530 - Xcc-8004.1438.1 0.50 -0.3
1,378,530 - Xcc-8004.1438.1 0.50 +1.3
1,378,697 + Xcc-8004.1438.1 0.65 -1.4
1,378,697 + Xcc-8004.1438.1 0.65 -0.7
1,378,697 + Xcc-8004.1438.1 0.65 -0.9
1,378,697 + Xcc-8004.1438.1 0.65 -1.7
1,378,721 - Xcc-8004.1438.1 0.67 -0.8
1,378,766 + Xcc-8004.1438.1 0.71 +0.6
1,378,767 - Xcc-8004.1438.1 0.71 +0.9
1,378,799 + Xcc-8004.1438.1 0.74 -0.8
1,378,799 + Xcc-8004.1438.1 0.74 +0.0
1,378,799 + Xcc-8004.1438.1 0.74 +2.1
1,378,800 - Xcc-8004.1438.1 0.74 +0.4
1,378,800 - Xcc-8004.1438.1 0.74 +0.5
1,378,800 - Xcc-8004.1438.1 0.74 +0.1
1,378,800 - Xcc-8004.1438.1 0.74 +0.1
1,378,800 - Xcc-8004.1438.1 0.74 -0.9
1,378,803 + Xcc-8004.1438.1 0.74 -0.9
1,378,804 - Xcc-8004.1438.1 0.75 -0.4
1,378,804 - Xcc-8004.1438.1 0.75 -1.6
1,378,883 + Xcc-8004.1438.1 0.82 -2.1
1,378,883 + Xcc-8004.1438.1 0.82 -0.0
1,378,883 + Xcc-8004.1438.1 0.82 -0.5
1,378,883 + Xcc-8004.1438.1 0.82 +0.5
1,378,884 - Xcc-8004.1438.1 0.82 -0.8
1,378,884 - Xcc-8004.1438.1 0.82 +0.1
1,378,884 - Xcc-8004.1438.1 0.82 -0.4
1,378,884 - Xcc-8004.1438.1 0.82 +0.2
1,378,884 - Xcc-8004.1438.1 0.82 -0.1
1,378,884 - Xcc-8004.1438.1 0.82 -0.0
1,378,884 - Xcc-8004.1438.1 0.82 +0.0
1,378,884 - Xcc-8004.1438.1 0.82 -0.2

Or see this region's nucleotide sequence